The University of Texas MD Anderson Cancer Center Science Park Next-Generation Sequencing (NGS) Facility was established in 2012, supported by a $6M Core Facility Support Award from CPRIT. Support for this facility was competitively renewed in 2016 with an additional $5M CPRIT Core Facility Support Award. Our facility is a regional NGS resource in central Texas that supports innovative and high-impact cancer research requiring extensive NGS DNA- or RNA-sequencing capabilities. Our NGS facility is built around a user group of over 30 cancer researchers from MD Anderson Science Park and Houston campuses, UT Austin, Baylor College of Medicine, Texas A&M, and Texas State University – San Marcos. Other qualified researchers in the Central Texas Region can access services of the NGS Facility, subject to availability of time on the sequencer. We have established several sequencing protocols, including protocols for low-input samples and their associated bioinformatics pipelines. We continue to add new capabilities based on the research needs of our user group.
Use of this core requires acknowledgement of CPRIT Core Facility Support Grants (#RP120348 & #RP170002) in your publications regardless of funding source.
Services and Instrumentation
Our Services Include:
- Total RNA
- Ultra low input
- FFPE (Total Access)
- Human/Mouse exome sequencing
- Reduced Representation Bisulfite Sequencing (RRBS)*
- Whole Genome Bisulfite Sequencing (WGBS)*
*In conjunction with the DNA Methylation Analysis Core
Our Instruments Include:
- Illumina HiSeq 3000 - primary NGS platform
- Illumina NextSeq 500 - primary NGS platform
- Illumina MiSeq - smaller scale NGS platform
- Illumina cBot - creates clonal clusters from single-molecule DNA templates
- Agilent 2100 Bioanalyzer - microfluidics based platform for nucleic acid QC
- Agilient 2200 TapeStation - agarose gel based platform for nucleic acid QC
- ABI QuantStudio 6 Flex - Library Quantification
- Covaris S200 - precision sonicator
- Biomek NX p - high-throughput automated liquid handling system
- Blue Pippin - preparative electrophoresis
Director and Staff
Professor Jianjun (J-J) Shen, Ph.D.
Research Laboratory Manager
Luis Coletta, M.S.
512-237-6446 (office) 512-237-9526 (lab)
Melissa Simper, Ph.D.
Yueping Chen, M.S.
Senior Research Assistant
Yoko Takata, M.S.
Biostatistics and Bioinformatics
Assistant Professor Yue Lu, Ph.D.
Senior Statistical Analyst
Yi Zhong, M.S., Ph.D.
Unix Systems Administrator
Sara (Sally) Gaddis, B.S.
Research Technican III
The Virginia Harris Cockrell Cancer Research Center
at the University of Texas MD Anderson Cancer Center, Science Park
Department of Epigenetics and Molecular Carcinogenesis
Mailing Address: P.O. Box 389, Smithville, Texas 78957
Physical Address: 1808 Park Road 1C, Smithville, Texas 78957
Jianjun (J-J) Shen, Ph.D.
Director, Science Park NGS Facility
Professor, Epigenetics and Molecular Carcinogenesis